This is a preprint, a preliminary version of a manuscript that has not completed peer review at a journal. Research Square does not conduct peer review prior to posting preprints. The posting of a preprint on this server should not be interpreted as an endorsement of its validity or suitability for dissemination as established information or for guiding clinical practice.
A new preprint design is coming!
We have improved readability, clarity, accessibility, and opportunities for engagement.
Research article
Zengnan Mo
Guangxi Medical University
Corresponding Author
ORCiD: https://orcid.org/0000-0003-3236-2498
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background The liver is an important digestive organ in the human body, which has a variety of physiological functions. Once the liver occurs dysfunction, it may indicate the occurrence of liver disease. Genome-wide association studies (GWAS) have identified a lot of genetic variants which are associated with liver disease. However, it is not clear that the genes with variants in which have cell type specificity.
Methods To investigate the association between liver cell types and liver disease, we used a new method that integrate the genes associated with liver diseases identified by GWAS and single-cell RNA sequencing (scRNA-seq) data for analysis. We applied the scRNA-seq data from the GEO database, which included 20 cell types from human liver and 9 cell types from mouse liver after reclassifying. The susceptibility genes of liver diseases were downloaded from GWAS catalog and matched to the results of liver scRNA-seq.
Results We found that most susceptibility genes of chronic hepatitis B virus (HBV) infection were expressed in human B cells. And the susceptibility genes of biomarkers of liver dysfunction showed similar cell type specificity in human and mouse. Last, we discovered that primary liver disease phenotypes may be due to mutations in multiple cell types.
Conclusions Collectively, this study localized the susceptibility genes of liver diseases to specific cell types and provided clues for the in-depth study of liver diseases at the transcriptome level.
Keywords
Single-cell RNA sequencing, scRNA-seq, GWAS, liver disease, specific cell types
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
Figure 6
Figure 7
This is a list of supplementary files associated with this preprint. Click to download.
Loading...
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
History
CURRENT STATUS: Posted
Version 1
Posted 04 Oct, 2019
No community comments so far
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
Subject Areas
Epigenetics & Genomics
Learn more about our company.
A new preprint design is coming!
We have improved readability, clarity, accessibility, and opportunities for engagement.
This is a preprint, a preliminary version of a manuscript that has not completed peer review at a journal. Research Square does not conduct peer review prior to posting preprints. The posting of a preprint on this server should not be interpreted as an endorsement of its validity or suitability for dissemination as established information or for guiding clinical practice.
Research article
Zengnan Mo
Guangxi Medical University
Corresponding Author
ORCiD: https://orcid.org/0000-0003-3236-2498
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
History
CURRENT STATUS: Posted
Version 1
Posted 04 Oct, 2019
No community comments so far
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
Subject Areas
Epigenetics & Genomics
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background The liver is an important digestive organ in the human body, which has a variety of physiological functions. Once the liver occurs dysfunction, it may indicate the occurrence of liver disease. Genome-wide association studies (GWAS) have identified a lot of genetic variants which are associated with liver disease. However, it is not clear that the genes with variants in which have cell type specificity.
Methods To investigate the association between liver cell types and liver disease, we used a new method that integrate the genes associated with liver diseases identified by GWAS and single-cell RNA sequencing (scRNA-seq) data for analysis. We applied the scRNA-seq data from the GEO database, which included 20 cell types from human liver and 9 cell types from mouse liver after reclassifying. The susceptibility genes of liver diseases were downloaded from GWAS catalog and matched to the results of liver scRNA-seq.
Results We found that most susceptibility genes of chronic hepatitis B virus (HBV) infection were expressed in human B cells. And the susceptibility genes of biomarkers of liver dysfunction showed similar cell type specificity in human and mouse. Last, we discovered that primary liver disease phenotypes may be due to mutations in multiple cell types.
Conclusions Collectively, this study localized the susceptibility genes of liver diseases to specific cell types and provided clues for the in-depth study of liver diseases at the transcriptome level.
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
Figure 6
Figure 7
This is a list of supplementary files associated with this preprint. Click to download.
Loading...